In silico discovery and anti-tumor bioactivities validation of an algal lectin from Kappaphycus alvarezii genome.

Lectins are proteins that bind specifically and reversibly to carbohydrates, and some of them have significant anti-tumor activities. Compared to those of lectins from land plants, there are far fewer studies on algal lectins, despite of the high biodiversity of algae. However, canonical strategies based on chromatographic feature-oriented screening cannot satisfy the requirement for algal lectin discovery. In this study, prospecting for novel OAAH family lectins throughout 358 genomes of red algae and cyanobacteria was conducted. Then 35 candidate lectins and 1843 of their simulated mutated forms were virtually screened based on predicted binding specificities to characteristic carbohydrates on cancer cells inferred by a deep learning model. A new lectin, named Siye, was discovered in Kappaphycus alvarezii genome and further verified on different cancer cells. Without causing agglutination of erythrocytes, Siye showed significant cytotoxicity to four human cancer cell lines (IC50 values ranging from 0.11 to 3.95 µg/ml), including breast adenocarcinoma HCC1937, lung carcinoma A549, liver cancer HepG2 and romyelocytic leukemia HL60. And the cytotoxicity was induced through promoting apoptosis by regulating the caspase and the p53 pathway within 24 h. This study testifies the feasibility and efficiency of the genome mining guided by evolutionary theory and artificial intelligence in the discovery of algal lectins.

Transcriptomic profiling of the thermal tolerance in two subspecies of the bay scallop Argopecten irradians.

The bay scallop is a eurythermal species with high economic value and now represents the most cultured bivalve species in China. Two subspecies of the bay scallop, the northern subspecies Argopecten irradians irradians Korean population (KK) and the southern subspecies Argopecten irradians concentricus (MM), exhibited distinct adaptations to heat stress. However, the molecular mechanism of heat resistance of the two subspecies remains unclear. In this study, we compared the transcriptomic responses of the two subspecies to heat stress and identified the involved differentially expressed genes (DEGs) and pathways. More DEGs were found in the KK than in the MM when exposed to high temperatures, indicating elevated sensitivity to thermal stress in the KK. Enrichment analysis suggests that KK scallops may respond to heat stress more swiftly by regulating GTPase activity. Meanwhile, MM scallops exhibited higher resistance to heat stress mainly by effective activation of their antioxidant system. Chaperone proteins may play different roles in responses to heat stress in the two subspecies. In both subspecies, the expression levels of antioxidants such as GST were significantly increased; the glycolysis process regulated by PC and PCK1 was greatly intensified; and both apoptotic and anti-apoptotic systems were significantly activated. The pathways related to protein translation and hydrolysis, oxidoreductase activity, organic acid metabolism, and cell apoptosis may also play pivotal roles in the responses to heat stress. The results of this study may provide a theoretical basis for marker-assisted breeding of heat-resistant strains.

3D Shape Measurement of Aeroengine Blade Based on Fringe Projection Profilometer Improved by Multi-Layer Concentric Ring Calibration.

The precision requirements for aeroengine blade machining are exceedingly stringent. This study aims to improve the accuracy of existing aeroengine blade measurement methods while achieving comprehensive measurement. Therefore, this study proposes a new concentric ring calibration method and designs a multi-layer concentric ring calibration plate. The effectiveness of this calibration method was verified through actual testing of standard ball gauges. Compared with the checkerboard-grid calibration method, the average deviation of the multilayer concentric ring calibration method for measuring the center distance of the standard sphere is 0.02352, which improves the measurement accuracy by 3-4 times. On the basis of multi-layer concentric ring calibration, this study builds a fringe projection profiler based on the three-frequency twelve-step phase shift method. Compared with the CMM, the average deviation of the blade chord length measured by this solution is 0.064, which meets the measurement index requirements of aeroengine fan blades.

Genome-wide analysis of lectins in cyanobacteria: from evolutionary mode to motif patterns.

Lectins are glycoproteins that can bind to specific carbohydrates, and different lectin families exhibit different biological activities. They are also present in the cyanobacteria and many of them have shown excellent therapeutic effect, which deserve for bioprospecting. However, in comparison to those from terrestrial plants, the current knowledge on cyanobacterial lectins is very limited. To this end, genome-wide analyses were performed to find out their evolutionary mode and motif patterns in 316 genomes of representative taxa. In results, 196 putative cyanobacterial lectins were dig out and 105 of them were classified into known families. Seven lectins were found to be belonged to distinct two lectin families, and they may have the potential activities of both lectin families. Whereas no MFP-2, Chitin, and Nictaba family lectins were found. What's more, the Legume lectin-like lectin family was found to be the richest and most complex in cyanobacteria, which could be a main research direction for future cyanobacterial lectin bioprospecting and development. Our classification and prediction of cyanobacteria lectins is expected to provide assistance in the development of lectin-based medicine and provide solutions to the current thorny viral and tumor diseases in humans.

Circular RNAs are associated with the resistance to Newcastle disease virus infection in duck cells.

Introduction: Newcastle disease virus (NDV) is prevalent worldwide with an extensive host range. Among birds infected with velogenic NDV strains, chickens experience high pathogenicity and mortality, whereas ducks mostly experience mild symptoms or are asymptomatic. Ducks have a unique, innate immune system hypothesized to induce antiviral responses. Circular RNAs (circRNAs) are among the most abundant and conserved eukaryotic transcripts. These participate in innate immunity and host antiviral response progression. Methods: In this study, circRNA expression profile differences post-NDV infection in duck embryo fibroblast (DEF) cells were analyzed using circRNA transcriptome sequencing. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analyses were used to reveal significant enrichment of differentially expressed (DE) circRNAs. The circRNA-miRNA-mRNA interaction networks were used to predict the related functions of circRNAs. Moreover, circ-FBXW7 was selected to determine its effect on NDV infection in DEFs. Results: NDV infection altered circRNA expression profiles in DEF cells, and 57 significantly differentially expressed circRNAs were identified post-NDV infection. DEF responded to NDV by forming circRNAs to regulate apoptosis-, cell growth-, and protein degradation-related pathways via GO and KEGG enrichment analyses. circRNA-miRNA-mRNA interaction networks demonstrated that DEF cells combat NDV infection by regulating cellular pathways or apoptosis through circRNA-targeted mRNAs and miRNAs. circ-FBXW7 overexpression and knockdown inhibited and promoted viral replication, respectively. DEF cells mainly regulated cell cycle alterations or altered cellular sensing to combat NDV infection. Conclusion: These results demonstrate that DEF cells exert antiviral responses by forming circRNAs, providing novel insights into waterfowl antiviral responses.

Integrated Positioning System of Kiwifruit Orchard Mobile Robot Based on UWB/LiDAR/ODOM.

To address the issue of low positioning accuracy of mobile robots in trellis kiwifruit orchards with weak signal environments, this study investigated an outdoor integrated positioning method based on ultra-wideband (UWB), light detection and ranging (LiDAR), and odometry (ODOM). Firstly, a dynamic error correction strategy using the Kalman filter (KF) was proposed to enhance the dynamic positioning accuracy of UWB. Secondly, the particle filter algorithm (PF) was employed to fuse UWB/ODOM/LiDAR measurements, resulting in an extended Kalman filter (EKF) measurement value. Meanwhile, the odometry value served as the predicted value in the EKF. Finally, the predicted and measured values were fused through the EKF to estimate the robot's pose. Simulation results demonstrated that the UWB/ODOM/LiDAR integrated positioning method achieved a mean lateral error of 0.076 m and a root mean square error (RMSE) of 0.098 m. Field tests revealed that compared to standalone UWB positioning, UWB-based KF positioning, and LiDAR/ODOM integrated positioning methods, the proposed approach improved the positioning accuracy by 64.8%, 13.8%, and 38.3%, respectively. Therefore, the proposed integrated positioning method exhibits promising positioning performance in trellis kiwifruit orchards with potential applicability to other orchard environments.

The Path Planning and Location Method of Inspection Robot in a Large Storage Tank Bottom.

With the development of robot technology, inspection robots have been applied to the defect detection of large tanks. However, the existing path planning algorithm of the tank bottom detection robot is easy to fall into the local minimum, and the path is not smooth. Besides, the positioning of the tank bottom detection robot is not accurate. This article proposes a path planning and location algorithm for the large tank bottom detection robot. Specifically, we design a preset spiral path according to the shape of the tank bottom, and a rotating potential field (RPF) near the obstacle is added to avoid the problem of path planning falling into a local minimum. We obtained accurate and smooth planning results. Compared with the state-of-the-art, the RPF method reduced the average RMSE by 9.49%. In addition, by measuring the acoustic emission distance, the three-point positioning algorithm can be used to achieve the calculation of the robot position detection in the proposed method, and the average positioning error on the spiral path is only 0.0748 ± 0.0032.

A two-variable control and optimization method for imbalance of high pressure compressor based on improved genetic algorithm.

To solve the problem of low quality rate for one-time assembly of high-pressure compressors, an improved genetic algorithm (GA) is used to adjust and optimize the imbalance after assembly. This paper takes the post-assembly imbalance of a multi-stage rotor of a high-pressure compressor as the objective function, to reduce the post-assembly imbalance by adjusting the arrangement order of rotor blades and the assembly phase between rotors. We used a four-sector staggered distribution method to generate high-quality initial populations and added an elite retention strategy. The crossover and mutation probabilities are adaptively adjusted according to the fitness function values. The threshold termination condition is added to make the algorithm converge quickly so as to achieve fast, stable, and efficient search. The simulation results show that the imbalance is reduced by 99.46% by using the improved genetic algorithm, which is better than the traditional GA. The experimental results show that the imbalance of the two correction surfaces can be reduced to 640 and 760 g·mm, respectively, which is 86.7% and 87.1% better than the zero-degree assembly.

Monocular Depth Estimation: Lightweight Convolutional and Matrix Capsule Feature-Fusion Network.

This paper reports a study that aims to solve the problem of the weak adaptability to angle transformation of current monocular depth estimation algorithms. These algorithms are based on convolutional neural networks (CNNs) but produce results lacking in estimation accuracy and robustness. The paper proposes a lightweight network based on convolution and capsule feature fusion (CNNapsule). First, the paper introduces a fusion block module that integrates CNN features and matrix capsule features to improve the adaptability of the network to perspective transformations. The fusion and deconvolution features are fused through skip connections to generate a depth image. In addition, the corresponding loss function is designed according to the long-tail distribution, gradient similarity, and structural similarity of the datasets. Finally, the results are compared with the methods applied to the NYU Depth V2 and KITTI datasets and show that our proposed method has better accuracy on the C1 and C2 indices and a better visual effect than traditional methods and deep learning methods without transfer learning. The number of trainable parameters required by this method is 65% lower than that required by methods presented in the literature. The generalization of this method is verified via the comparative testing of the data collected from the internet and mobile phones.

Psychosocial determinants of healthcare personnel's willingness to carry real-time locating system tags during daily inpatient care in hospital managing COVID-19 patients: insights from a mixed-methods analysis.

OBJECTIVE: Real-time locating systems (RTLS) enable contact tracing and hand hygiene reminders, to improve hospital safety. Successful implementation requires healthcare personnel (HCP) to carry RTLS tags continuously. We assessed for determinants of HCP's willingness to use RTLS tags during routine inpatient care, and evaluated concerns using mixed-methods analysis. MATERIALS AND METHODS: We conducted a cross-sectional study in the 330-bed purpose-built National Centre for Infectious Diseases in Singapore, from January 15 through February 4, 2020. The anonymous survey comprised 24 questions based on constructs from behavioral models and an open-ended question. Principal component analysis was performed to derive the latent factor structure applied in the multivariable logistic regression analysis. Concerns were analyzed using thematic analysis. RESULTS: Of 260 HCP (nurses [40.8%], ancillary and administrative staff [23.1%], allied health professionals [18.5%], and physicians [17.7%]), 75% were willing to use the RTLS tag. After adjusting for age, gender, healthcare professional group, and duration of practice, the acceptance of the use of the RTLS tag (adjusted OR 11.28 [95% CI 4.39-29.00], P < .001) was highly associated with the willingness to use the RTLS tag. HCP who perceived the tag to be easy to use (adjusted OR 2.80 [95% CI 1.37-5.72], P = .005), were also more willing to use the tag. HCP were willing to carry the RTLS tag for the purpose of contact tracing despite privacy concerns. CONCLUSION: More communications on the intentions and data protection standards of the RTLS, and accessory enhancements for HCP's convenient and sustained use of the RTLS tag are crucial, to optimize RTLS's usefulness during the COVID-19 pandemic.

Reciprocal Effect of Copper and Iron Regulation on the Proteome of Synechocystis sp. PCC 6803.

Cyanobacteria can acclimate to changing copper and iron concentrations in the environment via metal homeostasis, but a general mechanism for interpreting their dynamic relationships is sparse. In this study, we assessed growth and chlorophyll fluorescence of Synechocystis sp. PCC 6803 and investigated proteomic responses to copper and iron deductions. Results showed that copper and iron exerted reciprocal effect on the growth and photosynthesis of Synechocystis sp. PCC 6803 at combinations of different concentrations. And some proteins involved in the uptake of copper and iron and the photosynthetic electron transport system exhibit Cu-Fe proteomic association. The protein abundance under copper and iron deduction affected the photosynthetic electronic activity of Synechocystis sp. PCC 6803 and eventually affected the growth and photosynthesis. Based on these results, we hypothesize that the Cu-Fe proteomic association of Synechocystis sp. PCC 6803 can be elucidated via the uptake system of outer membrane-periplasmic space-inner plasma membrane-thylakoid membrane, and this association is mainly required to maintain electron transfer. This study provides a broader view regarding the proteomic association between Cu and Fe in cyanobacteria, which will shed light on the role of these two metal elements in cyanobacterial energy metabolism and biomass accumulation.

Draft genome sequence data of Urechis unicinctus, a marine echiuroid worm.

Urechis unicinctus is mainly distributed in Japan, north Korea and the Yellow Sea and the coast of Bohai Bay in China, and its nutrition is rich. The body of Urechis unicinctus contains many types of bioactive polypeptides, such as plasmin and tachykinin, which hold high economic and medicinal values. Therefore, the study of Urechis unicinctus has great significance. But the genome of Urechis unicinctus remains unavailable till now. To further understand the evolution of Urechis unicinctus and determine more effective application of it, we assembled the first draft genome sequence and the assembly of Urechis unicinctus. The dataset can be assessed from the BioProject at NCBI (https://www.ncbi.nlm.nih.gov/bioproject/?term=Urechisunicinctus).

Dataset of the transcriptomes of Urechis unicinctus to identify differentially expressed genes (DEGs) under different temperature and exposure to open air.

Urechis unicinctus has a wide range of bioactive polypeptides with high edible, economic and medicinal values. As the key technical breakthrough, the artificial breeding is imperative. However, the seedling transport becomes a primary matter, which indicates the indispensability of realizing how Urechis unicinctus responses to various situations. We compared transcriptome of Urechis unicinctus under the dry and ultraviolet irradiation treatment and different temperature. The dataset of the organism in response to water-temperature variety was provided by using the Illumina Hiseq X Ten system, which will be helpful to understand the adaptation of Urechis unicinctus to changing temperature (low, high and room temperature) and open air (ultraviolet and desiccation). The assembly of the transcriptomes was carried out using the isoform sequencing (Iso-seq) method. The functions of expressed genes were annotated and categorized, while the DEGs were presented.

Plastid Engineering of a Marine Alga, Nannochloropsis gaditana, for Co-Expression of Two Recombinant Peptides.

The purpose of this study was to establish a plastid transformation system for expressing recombinant proteins in Nannochloropsis gaditana. On the basis of the sequenced plastid genome, the homologous flanking region, 16S-trnI/trnA-23S, and the endogenous regulatory fragments containing the psbA promoter, rbcL promoter, rbcL terminator, and psbA terminator were amplified from N. gaditana as elements of a plastid transformation vector. Then, the herbicide-resistant gene (bar) was used as a selectable marker, regulated by the psbA promoter and rbcL terminator. Finally, two codon-optimized antimicrobial peptide-coding genes linked by endogenous ribosome binding site (RBS) in a polycistron were inserted into the constructed vector under the regulation of the rbcL promoter and psbA terminator. After microparticle bombardment, the positive clones were detected using polymerase chain reaction (PCR), and Southern and Western blotting were used to assess the co-expression of the two antimicrobial peptides from the plastid. Nannochloropsis gaditana showed the potential to express recombinant proteins for biotechnological applications, for example, for the development of oral vaccines in aquaculture.

A hybrid biomaterial of biosilica and C-phycocyanin for enhanced photodynamic effect towards tumor cells.

Intricate mesoporous biosilica has many biomedical applications as a nanocarrier. However, its potential use in photodynamic therapy (PDT) has received little attention. This work reports the first fabrication of bio-engineered materials by covalently conjugating C-phycocyanin (C-PC), a natural photosensitizer, to biosilica for the PDT of tumor-associated macrophages. The resulting hybrid material showed outstanding photodynamic activity under 620 nm laser irradiation. Furthermore, it enhanced the relatively weak photodynamic effect of C-PC. This study also explored methods of biofunctionalizing biosilica for cancer phototherapy, a new pharmacological application of non-toxic C-PC.

Chloroplast Genetic Engineering of a Unicellular Green Alga Haematococcus pluvialis with Expression of an Antimicrobial Peptide.

The purpose of this study was to express an antimicrobial peptide in the chloroplast to further develop the plastid engineering of H. pluvialis. Homologous targeting of the 16S-trnI/trnA-23S region and four endogenous regulatory elements, including the psbA promoter, rbcL promoter, rbcL terminator, and psbA terminator in H. pluvialis, were performed to construct a chloroplast transformation vector for H. pluvialis. The expression of codon-optimized antimicrobial peptide piscidin-4 gene (ant1) and selection marker gene (bar, biolaphos resistance gene) in the chloroplast of H. pluvialis was controlled by the rbcL promoter and psbA promoter, respectively. Upon biolistic transformation and selection with phosphinothricin, integration and expression of ant1 in the chloroplast genome were detected using polymerase chain reaction (PCR), southern blotting, and western blotting. Using this method, we successfully expressed antimicrobial peptide piscidin-4 in H. pluvialis. Hence, our results showed H. pluvialis promises as a platform for expressing recombinant proteins for biotechnological applications, which will further contribute to promoting genetic engineering improvement of this strain.

Characterization and engineering of a dual-function diacylglycerol acyltransferase in the oleaginous marine diatom Phaeodactylum tricornutum.

BACKGROUND: Photosynthetic oleaginous microalgae are promising feedstocks for biofuels. Acyl-CoA:diacylglycerol acyltransferases (DGATs) represent rich sources for engineering microalgal lipid production. The principal activity of DGATs has been defined as a single-function enzyme catalyzing the esterification of diacylglycerol with acyl-CoA. RESULTS: A dual-function PtWS/DGAT associated with diatom Phaeodactylum tricornutum is discovered in the current study. Distinctive to documented microalgal DGAT types, PtWS/DGAT exhibits activities of both a wax ester synthase (WS) and a DGAT. WS/DGATs are broadly distributed in microalgae, with different topology and phylogeny from those of DGAT1s, DGAT2s, and DGAT3s. In vitro and in vivo assays revealed that PtWS/DGAT, functioning as either a WS or a DGAT, exhibited a preference on saturated FA substrate. Endogenous overexpression of PtWS/DGAT demonstrated that the DGAT activity was dominant, whereas the WS activity was condition dependent and relatively minor. Compared with the wild type (WT), overexpression of PtWS/DGAT in the diatom resulted in increased levels of total lipids (TL) and triacylglycerol (TAG) regardless of nitrogen availability. The stability and scalability of the introduced traits were further investigated at a 10-L photobioreactor, where the mutant growth resembled WT, with moderately increased productivity of TL and TAG. Furthermore, the production of wax esters increased considerably (from undetectable levels to 2.83%) under nitrogen-deplete conditions. CONCLUSIONS: PtWS/DGAT is a bifunctional enzyme and may serve as a promising target for the engineering of microalga-based oils and waxes for future industrial use.

Distribution of bacterial communities along the spatial and environmental gradients from Bohai Sea to northern Yellow Sea.

The eutrophic Bohai Sea receives large amount of suspended material, nutrients and contaminant from terrestrial runoff, and exchanges waters with the northern Yellow Sea through a narrow strait. This coastal region provides an ideal model system to study microbial biogeography. We performed high-throughput sequencing to investigate the distribution of bacterial taxa along spatial and environmental gradients. The results showed bacterial communities presented remarkable horizontal and vertical distribution under coastal gradients of spatial and environmental factors. Fourteen abundant taxa clustered the samples into three distinctive groups, reflecting typical habitats in shallow coastal water (seafloor depth ≤ 20 m), sunlit surface layer (at water surface with seafloor depth >20 m) and bottom water (at 2-3 m above sediment with seafloor depth >20 m). The most significant taxa of each cluster were determined by the least discriminant analysis effect size, and strongly correlated with spatial and environmental variables. Environmental factors (especially turbidity and nitrite) exhibited significant influences on bacterial beta-diversity in surface water (at 0 m sampling depth), while community similarity in bottom water (at 2-3 m above sediment) was mainly determined by depth. In both surface and bottom water, we found bacterial community similarity and the number of OTUs shared between every two sites decreased with increasing geographic distance. Bacterial dispersal was also affected by phosphate, which was possible due to the high ratios of IN/IP in this coastal sea area.

Spatial variation of microbial communities in sediments along the environmental gradients from Xiaoqing River to Laizhou Bay.

The Laizhou Bay is famous for aquaculture, but has been subject to eutrophication and contamination for years. High concentrations of nutrients from the Xiaoqing River are considered as the main cause for significant eutrophication in the west of Laizhou Bay. Here we present results of the research on sedimentary microbial assemblages along this spatial gradient between riverine and marine environments by high-throughput sequencing. The predominant phyla/classes of bacteria and fungi clustered the samples into two distinct provinces, while discriminant taxa of each province were strongly associated with spatial factors and inorganic nitrogen. Spatial variation of bacterial communities was mainly related with the distribution of phosphates, suggesting a phosphate-limitation pattern for the bacterial communities. Alpha- and beta-diversity of fungal communities exhibited a significant correlation with water depth. We consider the distinct distributional gradients of bacterial and fungal communities partly explain the different roles in the biogeochemical processes of coastal sediment.